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Use of bromodeoxyuridine immunocapture to identify psychrotolerant phenanthrene-degrading bacteria in phenanthrene-enriched polluted Baltic Sea sediments

Abstract The aim of this study was to enrich and identify psychrotolerant phenanthrene-degrading bacteria from polluted Baltic Sea sediments. Polyaromatic hydrocarbon (PAH)-contaminated sediments were spiked with phenanthrene and incubated for 2 months in the presence of bromodeoxyuridine that is in... Full description

Journal Title: FEMS Microbiology-Ecology 2008-09-01, Vol.65 (3), p.513-525
Main Author: Edlund, Anna
Other Authors: Jansson, Janet K
Format: Electronic Article Electronic Article
Language: English
Subjects:
54
58
DNA
Quelle: Alma/SFX Local Collection
Publisher: Oxford, UK: Blackwell Publishing Ltd
ID: ISSN: 0168-6496
Zum Text:
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recordid: cdi_swepub_primary_oai_DiVA_org_sh_14126
title: Use of bromodeoxyuridine immunocapture to identify psychrotolerant phenanthrene-degrading bacteria in phenanthrene-enriched polluted Baltic Sea sediments
format: Article
creator:
  • Edlund, Anna
  • Jansson, Janet K
subjects:
  • 54
  • 58
  • Animal, plant and microbial ecology
  • Applied ecology
  • BACTERIA
  • Bacteria - genetics
  • Bacteria - isolation & purification
  • Bacteria - metabolism
  • BALTIC SEA
  • Baltic Sea sediment
  • Biodegradation
  • Biodegradation, Environmental
  • Biological and medical sciences
  • Biological Sciences
  • Biologiska vetenskaper
  • Bromodeoxyuridine
  • Bromodeoxyuridine - metabolism
  • BUDR
  • Cell culture
  • CLONING
  • Cloning, Molecular
  • Degradation
  • Deoxyribonucleic acid
  • Dioxygenase
  • DNA
  • DNA, Bacterial - genetics
  • Ecology
  • Ecotoxicology, biological effects of pollution
  • Enrichment
  • Exiguobacterium
  • Fundamental and applied biological sciences. Psychology
  • Gas Chromatography-Mass Spectrometry
  • Gene polymorphism
  • Gene sequencing
  • GENES
  • Genes, Bacterial
  • Genes, rRNA
  • Geologic Sediments - microbiology
  • HYDROCARBONS
  • INCUBATION
  • Microbial ecology
  • Microbiology
  • Mikrobiologi
  • Molecular Sequence Data
  • Natural Sciences
  • Naturvetenskap
  • Oceans and Seas
  • PHENANTHRENE
  • Phenanthrenes - metabolism
  • Pollution
  • Polycyclic aromatic hydrocarbons
  • Polycyclic Aromatic Hydrocarbons - metabolism
  • Polymerase Chain Reaction
  • Polymorphism
  • Polymorphism, Restriction Fragment Length
  • PSEUDOMONAS
  • Replicating
  • Restriction fragment length polymorphism
  • RNA, Ribosomal, 16S - genetics
  • rRNA 16S
  • Seawater - microbiology
  • Sediment pollution
  • SEDIMENTS
  • Sediments (Geology)
  • terminal‐restriction fragment length polymorphism
  • Water Microbiology
ispartof: FEMS Microbiology-Ecology, 2008-09-01, Vol.65 (3), p.513-525
description: Abstract The aim of this study was to enrich and identify psychrotolerant phenanthrene-degrading bacteria from polluted Baltic Sea sediments. Polyaromatic hydrocarbon (PAH)-contaminated sediments were spiked with phenanthrene and incubated for 2 months in the presence of bromodeoxyuridine that is incorporated into the DNA of replicating cells. The bromodeoxyuridine-incorporated DNA was extracted by immunocapture and analyzed by terminal-restriction fragment length polymorphism and 16S rRNA gene cloning and sequencing to identify bacterial populations that were growing. In addition, degradation genes were quantified in the bromodeoxyuridine-incorporated DNA by real-time PCR. Phenanthrene concentrations decreased after 2 months of incubation in the phenanthrene-enriched sediments and this reduction correlated to increases in copy numbers of xylE and phnAc dioxygenase genes. Representatives of Exiguobacterium, Schewanella, Methylomonas, Pseudomonas, Bacteroides and an uncultured Deltaproteobacterium and a Gammaproteobacterium dominated the growing community in the phenanthrene-spiked sediments. Isolates that were closely related to three of these bacteria (two pseudomonads and an Exiguobacterium sp.) could reduce phenanthrene concentrations in pure cultures and they all harbored phnAc dioxygenase genes. These results confirm that this combination of culture-based and molecular approaches was useful for identification of actively growing bacterial species with a high potential for phenanthrene degradation.
language: eng
source: Alma/SFX Local Collection
identifier: ISSN: 0168-6496
fulltext: fulltext
issn:
  • 0168-6496
  • 1574-6941
  • 1574-6941
url: Link


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titleUse of bromodeoxyuridine immunocapture to identify psychrotolerant phenanthrene-degrading bacteria in phenanthrene-enriched polluted Baltic Sea sediments
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creatorEdlund, Anna ; Jansson, Janet K
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descriptionAbstract The aim of this study was to enrich and identify psychrotolerant phenanthrene-degrading bacteria from polluted Baltic Sea sediments. Polyaromatic hydrocarbon (PAH)-contaminated sediments were spiked with phenanthrene and incubated for 2 months in the presence of bromodeoxyuridine that is incorporated into the DNA of replicating cells. The bromodeoxyuridine-incorporated DNA was extracted by immunocapture and analyzed by terminal-restriction fragment length polymorphism and 16S rRNA gene cloning and sequencing to identify bacterial populations that were growing. In addition, degradation genes were quantified in the bromodeoxyuridine-incorporated DNA by real-time PCR. Phenanthrene concentrations decreased after 2 months of incubation in the phenanthrene-enriched sediments and this reduction correlated to increases in copy numbers of xylE and phnAc dioxygenase genes. Representatives of Exiguobacterium, Schewanella, Methylomonas, Pseudomonas, Bacteroides and an uncultured Deltaproteobacterium and a Gammaproteobacterium dominated the growing community in the phenanthrene-spiked sediments. Isolates that were closely related to three of these bacteria (two pseudomonads and an Exiguobacterium sp.) could reduce phenanthrene concentrations in pure cultures and they all harbored phnAc dioxygenase genes. These results confirm that this combination of culture-based and molecular approaches was useful for identification of actively growing bacterial species with a high potential for phenanthrene degradation.
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languageeng
publisherOxford, UK: Blackwell Publishing Ltd
subject54 ; 58 ; Animal, plant and microbial ecology ; Applied ecology ; BACTERIA ; Bacteria - genetics ; Bacteria - isolation & purification ; Bacteria - metabolism ; BALTIC SEA ; Baltic Sea sediment ; Biodegradation ; Biodegradation, Environmental ; Biological and medical sciences ; Biological Sciences ; Biologiska vetenskaper ; Bromodeoxyuridine ; Bromodeoxyuridine - metabolism ; BUDR ; Cell culture ; CLONING ; Cloning, Molecular ; Degradation ; Deoxyribonucleic acid ; Dioxygenase ; DNA ; DNA, Bacterial - genetics ; Ecology ; Ecotoxicology, biological effects of pollution ; Enrichment ; Exiguobacterium ; Fundamental and applied biological sciences. Psychology ; Gas Chromatography-Mass Spectrometry ; Gene polymorphism ; Gene sequencing ; GENES ; Genes, Bacterial ; Genes, rRNA ; Geologic Sediments - microbiology ; HYDROCARBONS ; INCUBATION ; Microbial ecology ; Microbiology ; Mikrobiologi ; Molecular Sequence Data ; Natural Sciences ; Naturvetenskap ; Oceans and Seas ; PHENANTHRENE ; Phenanthrenes - metabolism ; Pollution ; Polycyclic aromatic hydrocarbons ; Polycyclic Aromatic Hydrocarbons - metabolism ; Polymerase Chain Reaction ; Polymorphism ; Polymorphism, Restriction Fragment Length ; PSEUDOMONAS ; Replicating ; Restriction fragment length polymorphism ; RNA, Ribosomal, 16S - genetics ; rRNA 16S ; Seawater - microbiology ; Sediment pollution ; SEDIMENTS ; Sediments (Geology) ; terminal‐restriction fragment length polymorphism ; Water Microbiology
ispartofFEMS Microbiology-Ecology, 2008-09-01, Vol.65 (3), p.513-525
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02008 Federation of European Microbiological Societies. Published by Blackwell Publishing Ltd. All rights reserved 2008
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0Use of bromodeoxyuridine immunocapture to identify psychrotolerant phenanthrene-degrading bacteria in phenanthrene-enriched polluted Baltic Sea sediments
1FEMS Microbiology-Ecology
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descriptionAbstract The aim of this study was to enrich and identify psychrotolerant phenanthrene-degrading bacteria from polluted Baltic Sea sediments. Polyaromatic hydrocarbon (PAH)-contaminated sediments were spiked with phenanthrene and incubated for 2 months in the presence of bromodeoxyuridine that is incorporated into the DNA of replicating cells. The bromodeoxyuridine-incorporated DNA was extracted by immunocapture and analyzed by terminal-restriction fragment length polymorphism and 16S rRNA gene cloning and sequencing to identify bacterial populations that were growing. In addition, degradation genes were quantified in the bromodeoxyuridine-incorporated DNA by real-time PCR. Phenanthrene concentrations decreased after 2 months of incubation in the phenanthrene-enriched sediments and this reduction correlated to increases in copy numbers of xylE and phnAc dioxygenase genes. Representatives of Exiguobacterium, Schewanella, Methylomonas, Pseudomonas, Bacteroides and an uncultured Deltaproteobacterium and a Gammaproteobacterium dominated the growing community in the phenanthrene-spiked sediments. Isolates that were closely related to three of these bacteria (two pseudomonads and an Exiguobacterium sp.) could reduce phenanthrene concentrations in pure cultures and they all harbored phnAc dioxygenase genes. These results confirm that this combination of culture-based and molecular approaches was useful for identification of actively growing bacterial species with a high potential for phenanthrene degradation.
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054
158
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3Applied ecology
4BACTERIA
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6Bacteria - isolation & purification
7Bacteria - metabolism
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9Baltic Sea sediment
10Biodegradation
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13Biological Sciences
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20Cloning, Molecular
21Degradation
22Deoxyribonucleic acid
23Dioxygenase
24DNA
25DNA, Bacterial - genetics
26Ecology
27Ecotoxicology, biological effects of pollution
28Enrichment
29Exiguobacterium
30Fundamental and applied biological sciences. Psychology
31Gas Chromatography-Mass Spectrometry
32Gene polymorphism
33Gene sequencing
34GENES
35Genes, Bacterial
36Genes, rRNA
37Geologic Sediments - microbiology
38HYDROCARBONS
39INCUBATION
40Microbial ecology
41Microbiology
42Mikrobiologi
43Molecular Sequence Data
44Natural Sciences
45Naturvetenskap
46Oceans and Seas
47PHENANTHRENE
48Phenanthrenes - metabolism
49Pollution
50Polycyclic aromatic hydrocarbons
51Polycyclic Aromatic Hydrocarbons - metabolism
52Polymerase Chain Reaction
53Polymorphism
54Polymorphism, Restriction Fragment Length
55PSEUDOMONAS
56Replicating
57Restriction fragment length polymorphism
58RNA, Ribosomal, 16S - genetics
59rRNA 16S
60Seawater - microbiology
61Sediment pollution
62SEDIMENTS
63Sediments (Geology)
64terminal‐restriction fragment length polymorphism
65Water Microbiology
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titleUse of bromodeoxyuridine immunocapture to identify psychrotolerant phenanthrene-degrading bacteria in phenanthrene-enriched polluted Baltic Sea sediments
authorEdlund, Anna ; Jansson, Janet K
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atitleUse of bromodeoxyuridine immunocapture to identify psychrotolerant phenanthrene-degrading bacteria in phenanthrene-enriched polluted Baltic Sea sediments
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abstractAbstract The aim of this study was to enrich and identify psychrotolerant phenanthrene-degrading bacteria from polluted Baltic Sea sediments. Polyaromatic hydrocarbon (PAH)-contaminated sediments were spiked with phenanthrene and incubated for 2 months in the presence of bromodeoxyuridine that is incorporated into the DNA of replicating cells. The bromodeoxyuridine-incorporated DNA was extracted by immunocapture and analyzed by terminal-restriction fragment length polymorphism and 16S rRNA gene cloning and sequencing to identify bacterial populations that were growing. In addition, degradation genes were quantified in the bromodeoxyuridine-incorporated DNA by real-time PCR. Phenanthrene concentrations decreased after 2 months of incubation in the phenanthrene-enriched sediments and this reduction correlated to increases in copy numbers of xylE and phnAc dioxygenase genes. Representatives of Exiguobacterium, Schewanella, Methylomonas, Pseudomonas, Bacteroides and an uncultured Deltaproteobacterium and a Gammaproteobacterium dominated the growing community in the phenanthrene-spiked sediments. Isolates that were closely related to three of these bacteria (two pseudomonads and an Exiguobacterium sp.) could reduce phenanthrene concentrations in pure cultures and they all harbored phnAc dioxygenase genes. These results confirm that this combination of culture-based and molecular approaches was useful for identification of actively growing bacterial species with a high potential for phenanthrene degradation.
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